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Lovley DR.\'a0 2017.\'a0\'a0Happy together: microbial communities that hook up to swap electrons.. ISME J. 11(2):327-336.\par \par Feist AM, Nagarajan H, Rotaru A-E, Tremblay P-L, Zhang T, Nevin KP, Lovley DR, Zengler K.\'a0 2014.\'a0\'a0Constraint-based modeling of carbon fixation and the energetics of electron transfer in Geobacter metallireducens.. PLoS Comput Biol. 10(4):e1003575.\par \par Meniche X, Otten R, M Siegrist S, Baer CE, Murphy KC, Bertozzi CR, Sassetti CM.\'a0 2014.\'a0\'a0Subpolar addition of new cell wall is directed by DivIVA in mycobacteria.. Proc Natl Acad Sci U S A. 111(31):E3243-51.\par \par Nagarajan H, Embree M, Rotaru A-E, Shrestha PM, Feist AM, Palsson B\'d8, Lovley DR, Zengler K.\'a0 2013.\'a0\'a0Characterization and modelling of interspecies electron transfer mechanisms and microbial community dynamics of a syntrophic association.. Nat Commun. 4:2809.\par \par Qiu Y, Nagarajan H, Embree M, Shieu W, Abate E, Ju\'e1rez K, Cho B-K, Elkins JG, Nevin KP, Barrett CL et al..\'a0 2013.\'a0\'a0Characterizing the interplay between multiple levels of organization within bacterial sigma factor regulatory networks.. Nat Commun. 4:1755.\par \par He Y, Swaminathan A, Lopes JM.\'a0 2012.\'a0\'a0Transcription regulation of the Saccharomyces cerevisiae PHO5 gene by the Ino2p and Ino4p basic helix-loop-helix proteins.. Mol Microbiol. 83(2):395-407.\par \par Fang Y, Scheibe TD, Mahadevan R, Garg S, Long PE, Lovley DR.\'a0 2011.\'a0\'a0Direct coupling of a genome-scale microbial in silico model and a groundwater reactive transport model.. J Contam Hydrol. 122(1-4):96-103.\par \par Zhuang K, Izallalen M, Mouser P, Richter H, Risso C, Mahadevan R, Lovley DR.\'a0 2011.\'a0\'a0Genome-scale dynamic modeling of the competition between Rhodoferax and Geobacter in anoxic subsurface environments.. ISME J. 5(2):305-16.\par \par Mahadevan R, Palsson B\'d8, Lovley DR.\'a0 2011.\'a0\'a0In situ to in silico and back: elucidating the physiology and ecology of Geobacter spp. using genome-scale modelling.. Nat Rev Microbiol. 9(1):39-50.\par \par Morita YS, Fukuda T, Sena CBC, Yamaryo-Botte Y, McConville MJ, Kinoshita T.\'a0 2011.\'a0\'a0Inositol lipid metabolism in mycobacteria: biosynthesis and regulatory mechanisms.. Biochim Biophys Acta. 1810(6):630-41.\par \par Sun J, Haveman SA, Bui O, Fahland TR, Lovley DR.\'a0 2010.\'a0\'a0Constraint-based modeling analysis of the metabolism of two Pelobacter species.. BMC Syst Biol. 4:174.\par \par Zhao J, Fang Y, Scheibe TD, Lovley DR, Mahadevan R.\'a0 2010.\'a0\'a0Modeling and sensitivity analysis of electron capacitance for Geobacter in sedimentary environments.. J Contam Hydrol. 112(1-4):30-44.\par \par Scheibe TD, Mahadevan R, Fang Y, Garg S, Long PE, Lovley DR.\'a0 2009.\'a0\'a0Coupling a genome-scale metabolic model with a reactive transport model to describe in situ uranium bioremediation.. Microb Biotechnol. 2(2):274-86.\par \par Risso C, Sun J, Zhuang K, Mahadevan R, DeBoy R, Ismail W, Shrivastava S, Huot H, Kothari S, Daugherty S et al..\'a0 2009.\'a0\'a0Genome-scale comparison and constraint-based metabolic reconstruction of the facultative anaerobic Fe(III)-reducer Rhodoferax ferrireducens.. BMC Genomics. 10:447.\par \par Sun J, Sayyar B, Butler JE, Pharkya P, Fahland TR, Famili I, Schilling CH, Lovley DR, Mahadevan R.\'a0 2009.\'a0\'a0Genome-scale constraint-based modeling of Geobacter metallireducens.. BMC Syst Biol. 3:15.\par \par Griffith KL, Fitzpatrick MM, Keen EF, Wolf RE.\'a0 2009.\'a0\'a0Two functions of the C-terminal domain of Escherichia coli Rob: mediating "sequestration-dispersal" as a novel off-on switch for regulating Rob's activity as a transcription activator and preventing degradation of Rob by Lon protease.. J Mol Biol. 388(3):415-30.\par \par Segura D, Mahadevan R, Ju\'e1rez K, Lovley DR.\'a0 2008.\'a0\'a0Computational and experimental analysis of redundancy in the central metabolism of Geobacter sulfurreducens.. PLoS Comput Biol. 4(2):e36.\par \par Mahadevan R, Lovley DR.\'a0 2008.\'a0\'a0The degree of redundancy in metabolic genes is linked to mode of metabolism.. Biophys J. 94(4):1216-20.\par \par Long J E, Renzette N, Centore RC, Sandler SJ.\'a0 2008.\'a0\'a0Differential requirements of two recA mutants for constitutive SOS expression in Escherichia coli K-12.. PLoS One. 3(12):e4100.\par \par Lovley DR.\'a0 2008.\'a0\'a0Extracellular electron transfer: wires, capacitors, iron lungs, and more.. Geobiology. 6(3):225-31.\par \par Izallalen M, Mahadevan R, Burgard A, Postier B, DiDonato R, Sun J, Schilling CH, Lovley DR.\'a0 2008.\'a0\'a0Geobacter sulfurreducens strain engineered for increased rates of respiration.. Metab Eng. 10(5):267-75.\par \par Yan B, Lovley DR, Krushkal J.\'a0 2007.\'a0\'a0Genome-wide similarity search for transcription factors and their binding sites in a metal-reducing prokaryote Geobacter sulfurreducens.. Biosystems. 90(2):421-41.\par \par Lopper M, Boonsombat R, Sandler SJ, Keck JL.\'a0 2007.\'a0\'a0A hand-off mechanism for primosome assembly in replication restart.. Mol Cell. 26(6):781-93.\par \par Chen M, Lopes JM.\'a0 2007.\'a0\'a0Multiple basic helix-loop-helix proteins regulate expression of the ENO1 gene of Saccharomyces cerevisiae.. Eukaryot Cell. 6(5):786-96.\par \par Mahadevan R, Bond DR, Butler JE, Esteve-Nu\'f1ez A, Coppi MV, Palsson BO, Schilling CH, Lovley DR.\'a0 2006.\'a0\'a0Characterization of metabolism in the Fe(III)-reducing organism Geobacter sulfurreducens by constraint-based modeling.. Appl Environ Microbiol. 72(2):1558-68.\par \par Vriezen JAC, de Bruijn FJ, N\'fcsslein K.\'a0 2006.\'a0\'a0Desiccation responses and survival of Sinorhizobium meliloti USDA 1021 in relation to growth phase, temperature, chloride and sulfate availability.. Lett Appl Microbiol. 42(2):172-8.\par \par Hancock LC, Behta RP, Lopes JM.\'a0 2006.\'a0\'a0Genomic analysis of the Opi- phenotype.. Genetics. 173(2):621-34.\par \par Morita YS, Velasquez R, Taig E, Waller RF, Patterson JH, Tull D, Williams SJ, Billman-Jacobe H, McConville MJ.\'a0 2005.\'a0\'a0Compartmentalization of lipid biosynthesis in mycobacteria.. J Biol Chem. 280(22):21645-52.\par \par Lovley DR.\'a0 2005.\'a0\'a0Crystal ball. In silico biology meets in situ phenomenology.. Environ Microbiol. 7(4):478-9.\par \par Lovley DR.\'a0 2003.\'a0\'a0Cleaning up with genomics: applying molecular biology to bioremediation.. Nat Rev Microbiol. 1(1):35-44.\par \par Gardocki M E, Lopes JM.\'a0 2003.\'a0\'a0Expression of the yeast PIS1 gene requires multiple regulatory elements including a Rox1p binding site.. J Biol Chem. 278(40):38646-52.\par \par Sandler SJ, McCool JD, Do TT, Johansen RU.\'a0 2001.\'a0\'a0PriA mutations that affect PriA-PriC function during replication restart.. Mol Microbiol. 41(3):697-704.\par \par }